GgaINT0032800 @ galGal3
Intron Retention
Gene
ENSGALG00000007899 | F1NJ26_CHICK
Description
NA
Coordinates
chr9:16707180-16707541:+
Coord C1 exon
chr9:16707180-16707335
Coord A exon
chr9:16707336-16707425
Coord C2 exon
chr9:16707426-16707541
Length
90 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGG
5' ss Score
6.34
3' ss Seq
ACCTGTACGCTACGTTTCAGCTC
3' ss Score
5.17
Exon sequences
Seq C1 exon
CAATGACGGGCTCTTTGAAGTTGCCTACTACTGCAACGTGCTGGTCTACAACACTGGCTACGTCTACTGGCTGCCCCCCGCCATCTTCCGCAGCGCCTGCCCCATCAATGTCAACTTCTTCCCCTTTGATTGGCAGAACTGCACCCTCAAATTCAG
Seq A exon
GTGTGGGGTCTGGCAGCACTGTGCCAAAGGATGGGTTGGAGGACAAAGTGGTGGGCGCAGACCCTCACTTACCTGTACGCTACGTTTCAG
Seq C2 exon
CTCATTGGCATACAATGCACAGGAGATCAACATGCACCTGAAGGAGGAGAGTGACCCAGAGACCGAAAAGAATTACCGGGTGGAGTGGATCATCATTGACCCCGAAGGCTTCACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007899:ENSGALT00000012824:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.025
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(23.2=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(17.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTACTACTGCAACGTGCTGG
R:
TCTCCTCCTTCAGGTGCATGT
Band lengths:
183-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]